Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaatcttgttcatattgtcaacttcttgctagttagtgtgccttgtgtgatattaagttttctgaaaatggattgtgtaattagtcaacaactt...

Basic information

species Glycine max
transcript GLYMA10G05130.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G05130.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g02310.1 (Oryza sativa), 5'ss of exon 5
TATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtac----ttgaatctt-gttcatattgtcaacttcttgctagt-----tagtgtgccttgtgtgatattaagttttctgaaaatggattgtgtaattagtcaacaactt
| | || || ||||| |||||||| |||||||||||||| || || || || ||  | ||||| ||| |||||||  |||||||  ||||||| |||||||||     ||| || || |||  || |   | | | ||||| ||     ||         |||    | |   |||||     |   ||| ||||| |            
TGTGCTCTATTCATCAGTTGTGTACCCTCACAACTATGGATTCATTCCTCGCACGCTGTGTGAAGACAGTGATCCGTTGGATGTGCTGGTTATAATGCAGgtatgtctttgtattttagttggtactagaatcctattgcttgtactcttaagaaaaacagtgcacaagtttcttttcccttcagccattatgtaaattc----------

upper sequence: GLYMA10G05130.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G137930_T02 (Zea mays), 5'ss of exon 6
TATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgta--cttgaatcttgttcatattgtcaacttcttgctagttagtgtgccttgtgtgatattaagttttctgaaaatggattgtgtaattagtcaacaactt
| | || || ||||| ||||| || |||||||||||||| || || || || ||  ||||||| ||| |||||||  |||||||  ||||||| |||||||||  |||   | || |  ||||  |     | |  | |  | ||    |    ||||| | |   |   ||   ||   ||| |  | |  |||| | |||
TGTGCTGTATTCATCAGTTGTTTACCCTCACAACTATGGATTCATTCCTCGCACGCTTTGTGAAGACAGTGATCCTTTGGATGTACTGGTTATAATGCAGgtatgcttcttttttatatatatcattgggat-tcacaaaatggtacatcagtagtgatctgagtatccttgggcataagttgagctaattttcaa-atctt

upper sequence: GLYMA10G05130.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 5'ss of exon 5
TATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtac-ttgaatcttgttcatattgtcaacttcttgctagttagtgtgccttgtgtgatattaagttttctgaaaatggattgtgtaattagtcaacaactt--------
| | || ||||| || |||||||| || ||||||||||| ||||||||||||||| | |||||||||  ||| ||||||||||||||||||||||||||||||   | |||  ||||     |||       |  ||  || |  ||| |  | |  |     || | ||||  |   | ||  |  || |  ||||| ||        
TGTGCTGTACTCTTCAGTTGTGTACCCCCACAACTATGGCTTTATCCCACGTACTCTCTGTGAGGACAATGACCCCATGGATGTCTTGGTTATCATGCAGgtatgcttaatgctgtttgacatgtg------tcactgttttgaatgcgtcatattttcacctgtatgctgattac--aatgcatgtttgga-aacaattttatttatc

upper sequence: GLYMA10G05130.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S46_53V6.1 (Physcomitrella patens), 5'ss of exon 6
TATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtact--tgaatcttgttcatattgtcaacttcttgctagttagtgtgccttgtg--tgatattaagttttctgaaaatggattgtgtaattagtcaacaactt
|||| | |||||||| ||||| ||||| ||||| |||||||| || ||||||||| |||||||||| |  |||||||| |||||  | || || |||||||||||  | ||   | ||  | ||    |||   |   |     |||   |||||  ||| ||  | |    |    || |     |||| |   |   |    
TATCTTGTACTCATCAGTTGTCTATCCACACAATTATGGGTTCATTCCACGTACTCTTTGTGAGGATGAGGATCCCATTGATGTTCTCGTCATTATGCAGgtactattcaagacttttttttttccttactaaatttcaacatttgtattttgtgaatgagatagactgagatttttatagcaaaggtaaatgcacgtaa----

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|13480494|gb|BG509837.1|BG509837
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|151397331|gb|EV267204.1|EV267204
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|31561493|gb|CD487331.1|CD487331
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|58020419|gb|CX707161.1|CX707161
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|192317150|gb|FK009765.1|FK009765
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGACCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|192331411|gb|FK022716.1|FK022716
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAA                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|192302348|gb|FG996658.1|FG996658
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGC-TTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
EST: gi|13479092|gb|BG508435.1|BG508435
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCAGGTTGCTTTCTACGGGCCAAAGCTATTGGACTCATG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATCATGCAGgtacttgaatcttgttcatattgtcaacttcttgctagttagtgtgccttgtgtgatattaagttttctgaaaatggattgtgtaattagtcaacaactt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA